The irony here is that Windu6 hasn't said he doesn't believe in God or that there is a Christian God. On the contrary, he appears to accept that a god exists but that this god is flawed. One who was predisposed to psychoanalyze this might hypothesize that Windu6 had a significant negative event or loss in his life to which he blames the Christian God he was raised to believe in.

I'm not predisposed to psychoanalyze, so I'll refrain from making that hypothesis.